Police said Lewis walked away from the crash, leaving Paugh trapped in his car.
Paugh was airlifted to a Virginia hospital for surgery. He suffered injuries to his head, arm and hip, according to police.
Paugh has since retired from the state police.
In October, Lewis was indicted by a grand jury on a felony charge of fleeing from police causing injury and misdemeanor offenses including driving left of center and fleeing on foot from the scene of an accident.
Because of the drug charge, Berkeley County Prosecutor Pamela Games-Neely said she will seek to have Lewis' bail revoked.
The latest arrest stemmed from a traffic stop early Wednesday.
West Virginia State Police Trooper T.C. Kearns was on Edwin Miller Boulevard at around 12:30 a.m. when he spotted a Dodge Intrepid in the Exxon gas station's parking lot, according to court records.
Lewis got into the car and starting driving toward I-81, but did not use his turn signal when he got onto an on-ramp, records allege.
Kearns pulled the car over and reported smelling marijuana in it, records allege. In Lewis' pockets, Kearns alleged he found six small bags of marijuana, weighing a total of nearly 10 grams.
Police also found $297, which Lewis said did not belong to him, records show.
A conviction on the drug charge is punishable by a sentence of from one to 15 years in prison.